Contacts of the helix formed by residues 770 - 781 (chain C) in PDB entry 3ZNS
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLY 770 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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768C PRO 4.0 0.8 + - - -
769C MET* 1.3 74.2 - - - +
771C ASP* 1.3 67.0 + - - -
772C PRO* 4.3 1.8 - - - -
773C GLU* 2.8 17.9 + - - +
774C TYR* 3.3 27.0 + - - -
814C HIS* 3.6 19.5 - - - -
815C VAL* 4.3 5.6 - - - -
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Residues in contact with ASP 771 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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770C GLY* 1.3 67.8 - - - -
772C PRO* 1.4 66.1 - - + +
773C GLU 3.1 2.0 - - - -
774C TYR 3.2 0.3 + - - -
775C LEU* 2.7 40.9 + - + +
814C HIS 4.3 2.7 + - - -
815C VAL* 3.4 3.8 - - - -
816C SER* 2.6 51.1 + - - -
819C CYS* 3.2 24.0 - - - +
872C TRP* 3.0 31.5 + - + +
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Residues in contact with PRO 772 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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770C GLY* 3.5 1.6 - - - -
771C ASP* 1.4 94.9 - - + +
773C GLU* 1.3 68.5 + - - +
775C LEU* 4.0 8.3 - - + +
776C ALA* 3.0 30.0 + - - +
779C ARG* 5.0 1.2 + - - -
871C GLY 4.0 15.9 - - - +
872C TRP* 5.3 2.9 - - + +
874C GLN* 3.5 41.3 - - - +
875C LYS 4.2 0.2 - - - -
876C PRO* 3.8 19.7 - - + +
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Residues in contact with GLU 773 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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761C TRP* 3.5 7.9 - - + -
768C PRO 3.7 4.1 - - - +
769C MET* 3.6 26.9 - - + -
770C GLY 2.8 30.6 + - - +
771C ASP 3.1 0.2 - - - -
772C PRO* 1.3 82.0 - - - +
774C TYR* 1.3 60.3 + - + +
776C ALA* 3.5 3.6 + - - +
777C ALA* 2.9 27.7 + - - +
874C GLN* 5.3 2.4 - - - +
875C LYS 4.7 0.3 - - - +
876C PRO* 3.4 13.5 - - + +
877C ASN* 3.0 37.5 + - - +
880C ALA* 3.3 28.9 - - + -
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Residues in contact with TYR 774 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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706C TRP* 4.4 16.8 + - + -
708C VAL* 4.7 3.3 - - - +
729C LEU* 3.9 36.4 + - + -
730C HIS* 5.0 0.2 - - - -
761C TRP* 3.5 29.2 + + - -
769C MET* 4.5 3.6 - - + -
770C GLY 3.3 18.0 + - - +
771C ASP 3.2 2.8 + - - +
773C GLU* 1.3 79.1 - - + +
775C LEU* 1.3 65.1 + - - +
777C ALA* 3.3 7.3 + - - +
778C PHE* 3.0 28.1 + - - -
802C ALA* 3.8 9.6 - - + +
813C TYR* 3.6 27.4 - + - -
815C VAL* 3.8 24.9 - - + -
819C CYS* 4.4 9.9 - - - -
820C PHE* 5.9 1.3 - + - -
823C MET* 4.1 26.2 - - + -
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Residues in contact with LEU 775 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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771C ASP 2.7 28.8 + - - +
772C PRO* 4.0 6.3 - - + +
774C TYR* 1.3 72.8 - - - +
776C ALA* 1.3 57.8 + - - +
778C PHE* 3.0 7.0 + - - +
779C ARG* 2.9 42.8 + - - +
819C CYS* 4.3 14.6 - - - +
822C TYR* 3.6 35.4 - - + -
823C MET* 5.8 2.9 - - + -
826C GLN* 4.2 7.7 + - - +
872C TRP* 3.6 50.3 - - + +
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Residues in contact with ALA 776 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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772C PRO 3.0 20.8 + - - +
773C GLU* 3.5 5.2 - - - +
775C LEU* 1.3 74.4 - - - +
777C ALA* 1.3 58.5 + - - +
779C ARG* 3.2 25.8 + - - +
780C ILE* 2.9 41.8 + - + +
876C PRO* 4.0 19.3 - - + -
884C LEU* 4.2 12.6 - - + -
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Residues in contact with ALA 777 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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729C LEU* 3.7 24.5 - - + -
759C VAL* 4.6 3.4 - - + -
761C TRP* 3.9 15.5 - - + -
773C GLU 2.9 15.6 + - - +
774C TYR 3.4 8.7 - - - +
775C LEU 3.2 0.2 - - - -
776C ALA* 1.3 75.3 - - - +
778C PHE* 1.3 58.8 + - - +
781C VAL* 3.0 13.2 + - - +
782C VAL* 3.0 26.2 + - + +
884C LEU* 3.9 17.6 - - + +
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Residues in contact with PHE 778 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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704C VAL* 4.5 7.2 - - + -
706C TRP* 4.3 11.0 - + - -
729C LEU* 4.2 17.5 - - + -
774C TYR 3.0 17.4 + - - +
775C LEU* 3.0 9.4 + - - +
777C ALA* 1.3 75.8 - - - +
779C ARG* 1.3 63.7 + - - +
782C VAL* 4.0 27.6 - - + -
783C MET* 3.2 43.1 + - + +
784C PRO* 3.6 0.2 - - - +
823C MET* 3.5 58.8 - - + -
826C GLN* 3.8 32.1 - - + +
827C LEU* 3.9 17.3 - - + -
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Residues in contact with ARG 779 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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772C PRO 5.0 0.8 + - - -
775C LEU* 2.9 19.3 + - + +
776C ALA* 3.4 41.0 + - - +
778C PHE* 1.3 76.8 - - - +
780C ILE* 1.3 70.6 - - + +
783C MET* 5.0 0.6 - - - +
784C PRO* 3.0 24.4 - - - +
826C GLN* 5.3 5.2 - - - +
876C PRO* 5.5 5.1 - - - +
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Residues in contact with ILE 780 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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776C ALA* 2.9 31.8 + - + +
779C ARG* 1.3 86.6 - - + +
781C VAL* 1.3 68.5 + - + +
784C PRO* 3.5 14.0 - - - +
881C ILE* 6.0 4.5 - - + -
884C LEU* 4.5 17.0 - - + -
888C ILE* 3.8 30.5 - - + -
897C CYS 5.1 2.9 - - - +
898C MET* 4.1 9.8 - - - +
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Residues in contact with VAL 781 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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757C VAL* 3.8 28.7 - - + -
759C VAL* 4.1 13.0 - - + -
777C ALA 3.0 9.9 + - - +
780C ILE* 1.3 88.0 - - + +
782C VAL* 1.3 70.6 + - + +
783C MET 3.5 1.6 - - - -
784C PRO* 3.5 1.8 - - - +
785C ILE* 3.2 36.7 + - + +
884C LEU* 3.6 28.0 - - + -
887C VAL* 3.9 15.5 - - + -
888C ILE* 4.9 2.7 - - + -
898C MET* 4.1 17.3 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il